Next: Trait Ontology Table, Up: Overview

#### 2.1.1 Experiment Table

The experiment table summarizes the parameters of each mapping experiment. This table contains the following fields:

- map (string) : the name of the mapping experiment which must be unique.
- mapping.function (string) : the name of the mapping function used to build the genetic map for this mapping experiment. Presently the possible values are:
  - haldane
  - kosambi
- mapping.unit (string) : the unit of the genetic distances of the genetic linkage map. Possible values are M for Morgan or cM for centiMorgan.
- mapping expansion (boolean) : 1 if the genetic linkage map of this mapping experiment must be rescaled.
- mapping.cross : the cross design used to build the map (may differ from the cross.type).
- cross.type (string) : the cross design used to build the genetic linkage map. MetaQTL is able to deal with various types of experimental designs. The design is encoded by a string of characters. For example BC stands for backcross, SFi stands for selfed intercross lines and the integer i indicates the generation (if i=2 then we have a classical F2). Experimental designs presently supported are listed in the table below (the cross type naming and labelling convention comes from QTLCartographer).

  Cross type | Code | Example
  --- | --- | ---
  Backcross | BC | BC
  Selfed generation i intercross | SFi | SF2
  Randomly mated generation i intercross | RFi | RF3
  Recombined Inbred via selfing | RI0 | RI0
  Recombined Inbred via sib mating | RI1 | RI1
  Intermated (i generations) Recombined Inbred via selfing | IRI0i | IRI04
  Intermated (i generations) Recombined Inbred via sib mating | IRI1i | IRI13

- cross.name (string) : the name of the cross.
- cross.size (integer): the number of individuals used to build the genetic linkage map.

For example, inserting 5 mapping experiments leads to the following file

         map  mapping.function  mapping.unit  mapping.expansion  cross.type  cross.name  cross.size
         exp1   haldane   cM   0   SF2   Mo17xB73   200
         exp2   haldane   cM   1   RF4   F2xF252    300
         exp3   kosambi   M    0   BC    H99xF2     150
         exp4   haldane   cM   1   IRI04 F2xF252    400
         exp5   haldane   cM   0   SF4   Mo17xF2    150